[arch-commits] Commit in python-biopython/trunk (PKGBUILD)

[Evgeniy Alekseev]

    Date: Tuesday, March 18, 2014 @ 18:48:00
  Author: arcanis
Revision: 107714

upgpkg: python-biopython 1.63-3
python3.4 rebuild

Modified:
  python-biopython/trunk/PKGBUILD

----------+
 PKGBUILD |   53 +++++++++++++++++++++++++++++++++++++++++++++--------
 1 file changed, 45 insertions(+), 8 deletions(-)

Modified: PKGBUILD
===================================================================
--- PKGBUILD	2014-03-18 17:38:57 UTC (rev 107713)
+++ PKGBUILD	2014-03-18 17:48:00 UTC (rev 107714)
@@ -3,25 +3,62 @@
 # Contributor: Stunts <f.pinamartins at gmail dot com>
 # Contributor: damir <damir at archlinux dot org>
 
-pkgname=python-biopython
-_upstream_pkgname=biopython
+pkgname=('python2-biopython' 'python-biopython')
+_pkgname=biopython
 pkgver=1.63
-pkgrel=2
+pkgrel=3
 pkgdesc="Freely available Python tools for computational molecular biology"
 arch=('i686' 'x86_64')
 url="http://www.biopython.org"
 license=('custom')
-depends=('python-numpy')
-source=(http://www.biopython.org/DIST/${_upstream_pkgname}-${pkgver}.tar.gz)
+depends=('python2-numpy' 'python-numpy')
+source=(http://www.biopython.org/DIST/${_pkgname}-${pkgver}.tar.gz)
 md5sums=('09c58433150849b131d2d9bbfdf342d3')
 
+prepare() {
+  cp -r "${_pkgname}-${pkgver}" "${_pkgname}-${pkgver}-py2/"
+  
+  cd "${srcdir}/${_pkgname}-${pkgver}-py2/"
+  # change python to python2
+  sed -i "s|python|python2|g" "Bio/bgzf.py"
+  sed -i "s|python|python2|g" "Bio/DocSQL.py"
+  sed -i "s|python|python2|g" "Bio/kNN.py"
+  sed -i "s|python|python2|g" "Bio/LogisticRegression.py"
+  sed -i "s|python|python2|g" "Bio/PDB/parse_pdb_header.py"
+  sed -i "s|python|python2|g" "Bio/PDB/PDBList.py"
+  sed -i "s|python|python2|g" "Bio/Restriction/__init__.py"
+  sed -i "s|python|python2|g" "Bio/Restriction/PrintFormat.py"
+  sed -i "s|python|python2|g" "Bio/Restriction/Restriction.py"
+  sed -i "s|python|python2|g" "Bio/SeqUtils/__init__.py"
+  sed -i "s|python|python2|g" "Bio/UniProt/GOA.py"
+  sed -i "s|python|python2|g" "Bio/Wise/__init__.py"
+  sed -i "s|python|python2|g" "Bio/Wise/dnal.py"
+  sed -i "s|python|python2|g" "Bio/Wise/psw.py"
+}
+
 build() {
-  cd "${srcdir}/${_upstream_pkgname}-${pkgver}/"
+  cd "${srcdir}/${_pkgname}-${pkgver}-py2/"
+  python2 setup.py build
+  
+  cd "${srcdir}/${_pkgname}-${pkgver}/"
   python setup.py build
 }
 
-package() {
-  cd "${srcdir}/${_upstream_pkgname}-${pkgver}/"
+package_python2-biopython() {
+  depends=('python2-numpy')
+  optdepends=('python2-reportlab: for pdf graphics code'
+              'mysql-python: for BioSQL module')
+
+  cd "${srcdir}/${_pkgname}-${pkgver}-py2/"
+  python2 setup.py install --root="${pkgdir}"
+  install -Dm644 "LICENSE" "${pkgdir}/usr/share/licenses/${pkgname}/LICENSE"
+}
+
+package_python-biopython() {
+  depends=('python-numpy')
+  
+  cd "${srcdir}/${_pkgname}-${pkgver}/"
   python setup.py install --root="${pkgdir}"
   install -Dm644 "LICENSE" "${pkgdir}/usr/share/licenses/${pkgname}/LICENSE"
 }
+